Dataset with samples from Individuals with:
A- Defects in Intrinsic and Innate Immunity:
1)- TLR signaling pathway deficiency: MyD88 deficiency, Phenotype OMIM number 612260
B- Combined immunodeficiencies with associated or syndromic features:
1)- HOLI1/RBCK1 deficiency, Phenotype OMIM number 615895
2)- Anhidrotic ectodermalsysplasia with immunodeficiencies: NEMO deficiency, Phenotype OMIM number 300291
see PID classification: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4659841/
Loss-of-expression and loss-of-function mutations in HOIL1 (RBCK1) results in disruption of the linear ubiquitination assembly complex (LUBAC). Impairment of LUBAC results in impaired NF-kB activation in response to TNF and IL-1b in fibroblastic cells, but also display enhanced pro-inflammatory responses to TNF and IL-1b in leukocytes. Autosomal recessive complete human HOIL-1/RBCK1 deficiency is a new disorder with unbalanced cellular responses to pro-inflammatory cytokines, resulting in the paradoxical association of auto-inflammation and pyogenic bacterial disease, as well as the surprising development of muscular amylopectinosis. The genome-wide gene expression analysis showed that human HOIL-1 deficiency results in impaired NF-B activation in response to TNF- and IL-1 in fibroblastic cells.
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Skin fibroblast cell lines were derived from controls (n=3), patients with deficiencies for RBCK1 (HOIL1) (n=2), MYD88 (n=1), and NEMO (n=1). Cells were cultured for 8 or 24 hours in the presence of TNF (5ng/ml) or IL1B (5ng/ml) or left unstimulated for the same length of time.
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| Sample ID | !Sample Title | group | Cell type | treatment | Disease type |
|---|---|---|---|---|---|
| GSM769312 | Ctrl1 TNF 8h | Control TNF 8h | fibroblast | 5ng/ml TNF | healthy control |
| GSM769313 | RBCK1-/- 1 IL1B 8h | AR RBCK1 IL1B 8h | fibroblast | 5ng/ml IL1B | RBCK1 deficient patient |
| GSM769314 | Ctrl1 TNF 24h | Control TNF 24h | fibroblast | 5ng/ml TNF | healthy control |
| GSM769315 | RBCK1-/- 2 NS 8h | AR RBCK1 NS 8h | fibroblast | Non-stimulated | RBCK1 deficient patient |
| GSM769316 | RBCK1-/- 2 IL1B 24h | AR RBCK1 IL1B 24h | fibroblast | 5ng/ml IL1B | Fibroblasts RBCK1 deficient patient |
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| Sample ID | !Sample Title | Group | Cell type | Treatment | Disease type | Time (hours) |
|---|---|---|---|---|---|---|
| GSM769312 | Ctrl1 TNF 8h |
Control TNF 8h |
fibroblast |
5ng/ml TNF |
healthy control |
8 |
| GSM769313 | RBCK1-/- 1 IL1B 8h |
AR RBCK1 IL1B 8h |
fibroblast |
5ng/ml IL1B |
RBCK1 deficient patient |
8 |
| GSM769314 | Ctrl1 TNF 24h |
Control TNF 24h |
fibroblast |
5ng/ml TNF |
healthy control |
24 |
| GSM769315 | RBCK1-/- 2 NS 8h |
AR RBCK1 NS 8h |
fibroblast |
Non-stimulated |
RBCK1 deficient patient |
8 |
| GSM769316 | RBCK1-/- 2 IL1B 24h |
AR RBCK1 IL1B 24h |
fibroblast |
5ng/ml IL1B |
Fibroblasts RBCK1 deficient patient |
24 |
| GSM769317 | Ctrl1 NS 24h |
Control NS 24h |
fibroblast |
Non-stimulated |
healthy control |
24 |
| GSM769318 | Ctrl6 NS 8h |
Control NS 8h |
fibroblast |
Non-stimulated |
healthy control |
8 |
| GSM769319 | Ctrl6 IL1B 8h |
Control IL1B 8h |
fibroblast |
5ng/ml IL1B |
healthy control |
8 |
| GSM769320 | RBCK1-/- 1 IL1B 24h |
AR RBCK1 IL1B 24h |
fibroblast |
5ng/ml IL1B |
RBCK1 deficient patient |
24 |
| GSM769321 | Ctrl5 IL1B 8h |
Control IL1B 8h |
fibroblast |
5ng/ml IL1B |
healthy control |
8 |
| GSM769322 | Ctrl5 NS 24h |
Control NS 24h |
fibroblast |
Non-stimulated |
healthy control |
24 |
| GSM769323 | RBCK1-/- 2 TNF 24h |
AR RBCK1 TNF 24h |
fibroblast |
5ng/ml TNF |
RBCK1 deficient patient |
24 |
| GSM769324 | Ctrl1 NS 8h |
Control NS 8h |
fibroblast |
Non-stimulated |
healthy control |
8 |
| GSM769325 | Nemo-/- TNF 8h |
AR NEMO TNF 8h |
fibroblast |
5ng/ml TNF |
NEMO deficient patient |
8 |
| GSM769326 | RBCK1-/- 1 TNF 24h |
AR RBCK1 TNF 24h |
fibroblast |
5ng/ml TNF |
RBCK1 deficient patient |
24 |
| GSM769327 | Nemo-/- IL1B 8h |
AR NEMO IL1B 8h |
fibroblast |
5ng/ml IL1B |
NEMO deficient patient |
8 |
| GSM769328 | Nemo-/- NS 24h |
AR NEMO NS 24h |
fibroblast |
Non-stimulated |
NEMO deficient patient |
24 |
| GSM769329 | RBCK1-/- 1 TNF 8h |
AR RBCK1 TNF 8h |
fibroblast |
5ng/ml TNF |
RBCK1 deficient patient |
8 |
| GSM769330 | Myd88-/- IL1B 8h |
AR MyD88 IL1B 8h |
fibroblast |
5ng/ml IL1B |
MyD88 deficient patient |
8 |
| GSM769331 | RBCK1-/- 2 TNF 8h |
AR RBCK1 TNF 8h |
fibroblast |
5ng/ml TNF |
RBCK1 deficient patient |
8 |
| GSM769332 | Myd88-/- NS 24h |
AR MyD88 NS 24h |
fibroblast |
Non-stimulated |
MyD88 deficient patient |
24 |
| GSM769333 | RBCK1-/- 1 NS 8h |
AR RBCK1 NS 8h |
fibroblast |
Non-stimulated |
RBCK1 deficient patient |
8 |
| GSM769334 | Ctrl1 IL1B 8h |
Control IL1B 8h |
fibroblast |
5ng/ml IL1B |
healthy control |
8 |
| GSM769335 | Nemo-/- NS 8h |
AR NEMO NS 8h |
fibroblast |
Non-stimulated |
NEMO deficient patient |
8 |
| GSM769336 | RBCK1-/- 1 NS 24h |
AR RBCK1 NS 24h |
fibroblast |
Non-stimulated |
RBCK1 deficient patient |
24 |
| GSM769337 | Nemo-/- IL1B 24h |
AR NEMO IL1B 24h |
fibroblast |
5ng/ml IL1B |
NEMO deficient patient |
24 |
| GSM769338 | Ctrl5 IL1B 24h |
Control IL1B 24h |
fibroblast |
5ng/ml IL1B |
healthy control |
24 |
| GSM769339 | Ctrl5 NS 8h |
Control NS 8h |
fibroblast |
Non-stimulated |
healthy control |
8 |
| GSM769340 | Nemo-/- TNF 24h |
AR NEMO TNF 24h |
fibroblast |
5ng/ml TNF |
NEMO deficient patient |
24 |
| GSM769341 | Ctrl6 IL1B 24h |
Control IL1B 24h |
fibroblast |
5ng/ml IL1B |
healthy control |
24 |
| GSM769342 | Ctrl5 TNF 24h |
Control TNF 24h |
fibroblast |
5ng/ml TNF |
healthy control |
24 |
| GSM769343 | Myd88-/- IL1B 24h |
AR MyD88 IL1B 24h |
fibroblast |
5ng/ml IL1B |
MyD88 deficient patient |
24 |
| GSM769344 | Ctrl6 TNF 24h |
Control TNF 24h |
fibroblast |
5ng/ml TNF |
healthy control |
24 |
| GSM769345 | Ctrl6 NS 24h |
Control NS 24h |
fibroblast |
Non-stimulated |
healthy control |
24 |
| GSM769346 | RBCK1-/- 2 NS 24h |
AR RBCK1 NS 24h |
fibroblast |
Non-stimulated |
RBCK1 deficient patient |
24 |
| GSM769347 | Myd88-/- NS 8h |
AR MyD88 NS 8h |
fibroblast |
Non-stimulated |
MyD88 deficient patient |
8 |
| GSM769348 | RBCK1-/- 2 IL1B 8h |
AR RBCK1 IL1B 8h |
fibroblast |
5ng/ml IL1B |
RBCK1 deficient patient |
8 |
| GSM769349 | Ctrl1 IL1B 24h |
Control IL1B 24h |
fibroblast |
5ng/ml IL1B |
healthy control |
24 |
| GSM769350 | Myd88-/- TNF 24h |
AR MyD88 TNF 24h |
fibroblast |
5ng/ml TNF |
MyD88 deficient patient |
24 |
| GSM769351 | Myd88-/- TNF 8h |
AR MyD88 TNF 8h |
fibroblast |
5ng/ml TNF |
MyD88 deficient patient |
8 |
| GSM769352 | Ctrl5 TNF 8h |
Control TNF 8h |
fibroblast |
5ng/ml TNF |
healthy control |
8 |
| GSM769353 | Ctrl6 TNF 8h |
Control TNF 8h |
fibroblast |
5ng/ml TNF |
healthy control |
8 |
| GSM769354 | Ctrl1 TNF 24h rep2 |
Control TNF 24h |
fibroblast |
5ng/ml TNF |
healthy control |
24 |
| GSM769355 | Ctrl1 NS 24h rep2 |
Control NS 24h |
fibroblast |
Non-stimulated |
healthy control |
24 |
| GSM769356 | Myd88-/- NS 24h rep2 |
AR MyD88 NS 24h |
fibroblast |
Non-stimulated |
MyD88 deficient patient |
24 |
| GSM769357 | Nemo-/- TNF 24h rep2 |
AR NEMO TNF 24h |
fibroblast |
5ng/ml TNF |
NEMO deficient patient |
24 |
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